BUG: partitioned run with mixed sequence and binary data crashes

[venni-keskiniva]

Hi,

I think I may have ran into a bug. I have a rather small dataset of sequences and binary data (some 1700 unique patterns and around 300 taxa with many similar sequences). I can run IQ-TREE with no issues with the sequence data or binary data alone, but when I try to run the mixed analysis it is inevitably killed. I haven't gotten any error message, but I suspect it is to do with RAM, as I see that several people have had a similar issue.

I am using IQ-TREE 1.6.12 on a MacBook Air.

I am using the following command to run the analysis:
iqtree -p partititonfile.nex -B 1000 -alrt 1000 -nt 4

My partition-file looks like this (partition specifications replaced with "..." to make it shorter for here):
#NEXUS
begin sets;
charset Partition_1 = dna.nex: 1 2 ...;
charset Partition_2_Partition_3_Partition_5 = dna.nex: 1556 ...;
charset Partition_4 = dna.nex: 10 ...;
charset Partition_6 = dna.nex: 30 ...;
charset gaps = gaps.nex: 1-171;
charpartition mymodels =
F81: Partition_1{0.0116996},
K3Pu{3.83804,0.554527}+F{0.320441,0.212304,0.18546,0.281795}: Partition_2_Partition_3_Partition_5{1.91812},
TIM{3.80616,0.510092,2.5422}+F{0.335995,0.219066,0.141179,0.30376}+ASC: Partition_4{1.18866},
TVMe{1.15964,3.90262,0.835974,0.0888411}+FQ+ASC+R3{0.81266,0.57693,0.175273,1.9823,0.0120672,15.2238}: Partition_6{4.50569},
GTR2+FO+ASC+R3: gaps;
end;

I would greatly appreciate any help with this issue!

All the best,
Venni Keskiniva

[francicco]

Hi,

I'm having the same problem. IqTree gets stack at Info: multi-threading strategy over partitions, then crashes.
Cheers
F